Hi-C Sequencing
Hi-C Sequencing: Ultra-long-range NGS for Next Generation Cytogenetics, Metagenomic Deconvolution, and Genome Scaffolding on the Illumina Platform
Hi-C-Seq – powered by Phase Genomics End-of-the-Year Promotion: 15% off
- Crude input samples – no HMW DNA preparation, no culturing necessary
- Crosslinking traps DNA sequences that are in close proximity to one another, across the genome and between different chromosomes
- Complete solution – from sample crosslinking to sequencing-ready libraries
- Highly referenced optimized kits for metagenomic, human, animal, plant, and fungal samples
- Cost-efficient de novo assemblies of genomes in any size, creation of high quality reference genomes, haplotype phasing, and structural genomics
- Next Generation Cytogenetics: High Resolution Analysis of Chromosomal Abnormalities by Genomic Proximity Mapping
- Metagenomics Hi-C enables accurate species determination, de novo microbial genome assemblies, and attribution of phages, plasmids, and antibiotic resistance genes to their hosts
High-throughput conformation capture – connect sequence and structure
Hi-C (Proximity Ligation) is one of a suite of chromosome conformation capture (or 3C) techniques originally devised to study the spatial organization of chromatin. Hi-C employs cost-effective, high-throughput, short-read sequencing to identify the nucleotide sequences of genomic loci that are co-located in three-dimensional space, but may be separated by significant distances in the linear genome. This powerful methodology has since enabled significant improvements in genome assembly of humans and other species, as well as structural variant and epigenetic analysis, and has unlocked many applications in metagenomics and microbiology.
Overview of proximity ligation (Hi-C). From: Lieberman-Aiden E, Dekker J. Science. 2009; 326:289.
How Hi-C Sequencing works: Chimeric junctions between adjacent sequences encode quantitative, long-range information
The input material for the Hi-C technique are crude samples of the organism of interest resp. of a complex microbial mixture. The contained DNA is crosslinked in vivo to fix all of the DNA contained in each cell. Crosslinking traps sequences that are in close proximity to one another, across the entire genome and between different chromosomes. In microbes, interactions between genomic DNA and mobile genetic elements (e.g. phages, plasmids, and transposons) are also captured. Crosslinked DNA is subsequently fragmented with endonucleases. Fragmented loci are biotinylated and proximity ligated, creating chimeric junctions between adjacent sequences. Biotinylated junctions are purified and subjected to deep, paired-end sequencing.
The information contained in the chimeric junctions is not limited to sequence (position in the linear genome), but can be decoded to reveal the physical origin of each junction partner in the three-dimensional structure of the DNA. Proximity ligation reads are mapped against a draft assembly or shotgun data to improve the quality and reliability of complex genomes and metagenomes. This in turn, enables improved insights in many areas of biology and medicine.
Hi-C Sequencing Applications:
Assess all major structural variant classes in a single assay
Detection of cytogenetic risk variants in oncology
Characterization of inherited complex chromosomal rearrangements
Unlock the 3rd dimension by understanding the connections between loci:
De Novo Assembly & Haplotype Phasing
3D Chromatin Regulation (TAD and Loop Calling)
Construct high-quality reference genomes to advance agricultural and ecological research & conservation, and to study evolution:
High-Quality Reference Genomes
Functional & Comparative Genomics
Obtain a complete picture of complex microbial communities, inclusive of all the moving parts:
Mobile Element Host Attribution
Viral Genome Reconstruction & Host Attribution
Antibiotic Resistance & Surveillance
Discovery, Bioprospecting & Functional Metagenomics
Proximo Hi-C-Seq kits from Phase Genomics are available for crosslinking of human, animal, plant, fungal and microbial samples, and include NGS library preparation and indexing reagents.
The ProxiMeta Hi-C platform includes all reagents for 8 microbiome samples as well as a full data analysis package for deciphering all metagenomes in complex microbial communities including mobile elements such as phages and plasmids and attribution to their hosts.
The Cytoterra Next Generation Cytogenetics Hi-C platform includes all reagents for 24 human samples such as blood, cells, and tissue including FFPE, as well as a full data analysis and visualization package for detecting known and novel structural chromosomal variants at unmatched resolution.
Please also visit our TELL-Seq Linked-Reads Technology website
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